[OTDev] Jaqpot3
chung chvng at mail.ntua.grWed Apr 13 01:46:09 CEST 2011
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Hi Vedrin, Thanks a lot for that. There was some problem with our services by the way around midnight yesterday. The problem was triggered only by GET on /bibtex/id but was enough for the whole application to hang but it's now fixed. This resource was something I forgot to profile before deploying the application... I'll check again the smokeping tests and java melody tomorrow morning. Best regards, Pantelis On Tue, 2011-04-12 at 23:31 +0300, Vedrin Jeliazkov wrote: > Hi Pantelis, > > Thanks a lot for this update. I've re-organised the NTUA-related > section of our SmokePing setup and added a few more targets, while > leaving out (for the time being) the calls that would result in > creating new entities. You can check the results at: > > http://ambit.uni-plovdiv.bg/cgi-bin/smokeping.cgi?target=NTUA > > Kind regards, > Vedrin > > On 12 April 2011 19:07, chung <chvng at mail.ntua.gr> wrote: > > Hi Vedrin, All, > > > > The latest version of jaqpot3 is up and running at > > http://opentox.ntua.gr:8080/ . I'll provide here some cURL requests > > which Vedrin could use to update smokeping: > > > > 0. First acquire a token > > export jaqpot_username=guest > > export jaqpot_pass=guest > > export token=`curl -X POST -k > > 'https://opensso.in-silico.ch:443/auth/authenticate?uri=service=openldap' -d username=$jaqpot_username -d password=$jaqpot_pass`; > > token=`echo $token | cut -c10-80` > > > > > > 1. List the 1000 first bibtex entries > > curl -H Accept:text/uri-list > > 'http://opentox.ntua.gr:8080/bibtex?max=1000' -H subjectid:$token > > > > 2. List all models > > curl -H Accept:text/uri-list http://opentox.ntua.gr:8080/model -H > > subjectid:$token > > > > 3. List all tasks > > curl -H Accept:text/uri-list http://opentox.ntua.gr:8080/task -H > > subjectid:$token > > > > 4. Get the RDF representation of a task: > > curl -H Accept:application/rdf+xml > > http://opentox.ntua.gr:8080/task/048aa8d1-3592-4095-bf9a-d5342e538ba9 -H > > subjectid:$token > > > > 5. Get the RDF representation of a model: > > curl -X GET > > http://opentox.ntua.gr:8080/model/092ba2bc-e7d8-4eda-8259-3789065e1d57 > > -H subjectid:$token > > > > 6. Train a model (requires authentication): > > curl -X POST -d > > dataset_uri=http://apps.ideaconsult.net:8080/ambit2/dataset/54 -d > > prediction_feature=http://apps.ideaconsult.net:8080/ambit2/feature/22202 > > http://opentox.ntua.gr:8080/algorithm/mlr -H Accept:text/uri-list -H > > subjectid:$token > > curl -X POST -d > > dataset_uri=http://apps.ideaconsult.net:8080/ambit2/dataset/54 -d > > prediction_feature=http://apps.ideaconsult.net:8080/ambit2/feature/22202 > > http://opentox.ntua.gr:8080/algorithm/svm -H Accept:text/uri-list -H > > subjectid:$token > > curl -X POST -d > > dataset_uri=http://apps.ideaconsult.net:8080/ambit2/dataset/54 -d > > prediction_feature=http://apps.ideaconsult.net:8080/ambit2/feature/22202 > > http://opentox.ntua.gr:8080/algorithm/fastRbfNn -H Accept:text/uri-list > > -H subjectid:$token > > curl -X POST -d > > dataset_uri=http://apps.ideaconsult.net:8080/ambit2/dataset/54 -d > > prediction_feature=http://apps.ideaconsult.net:8080/ambit2/feature/22202 > > http://opentox.ntua.gr:8080/algorithm/scaling -H Accept:text/uri-list -H > > subjectid:$token > > > > 7. Use a model for prediction: > > > > export > > svmModel=http://opentox.ntua.gr:8080/model/d488d65f-322d-4af4-b847-1ed6c2dc05be > > curl -X POST -H subjectid:$token -d > > "dataset_uri=http://apps.ideaconsult.net:8080/ambit2/dataset/54?max=10" > > $svmModel -H Accept:text/uri-list > > > > export > > fastRbfNnModel=http://opentox.ntua.gr:8080/model/1d34aaa8-2b8c-4c0b-a95a-8a439fcfcce1 > > curl -X POST -H subjectid:$token -d > > "dataset_uri=http://apps.ideaconsult.net:8080/ambit2/dataset/54?max=10" > > $fastRbfNnModel -H Accept:text/uri-list > > > > export > > mlrModel=http://opentox.ntua.gr:8080/model/d8572c7e-b453-485e-99bd-ed3772a5463b > > curl -X POST -H subjectid:$token -d > > "dataset_uri=http://apps.ideaconsult.net:8080/ambit2/dataset/54?max=10" > > $mlrModel -H Accept:text/uri-list > > > > > > 8. Create a bibliographic reference > > curl -X POST -d "author=John Smith" -d "title=Title" -d "address=10, > > Some Street" -d > > "crossref=http://opentox.ntua.gr:8080/bibtex/faca253c-37fa-42e1-8d04-0a2239f84c8f" -d "annotation=some annotation" -d bibtype=Article -d "pages=1455-1489" -d "abstract=summary" -d year=2011 -d volume=10 -d number=6 -d "journal=Intern. Journal of Something" -d "series=xyz" -d "url=http://someserver.com/reference/1" -d chapter=10 -d "keywords=QSAR,web services" -d edition=first -d "isbn=89-9-4325-123-43-34" -d "issn=0-0-0-0" http://opentox.ntua.gr:8080/bibtex -H subjectid:$token -H Accept:text/uri-list > > > > > > 9. You can now access the plain text representation of the bibtex entry > > you created: > > > > curl > > 'http://opentox.ntua.gr:8080/bibtex/160fa0cb-d749-4d21-a66c-eac54d5cffc4?accept=text/plain' -H subjectid:$token > > > > 10. Some statistics regarding the database are available in XML at > > http://opentox.ntua.gr:8080/dbstats > > > > Best regards, > > Pantelis > > _______________________________________________ > > Development mailing list > > Development at opentox.org > > http://www.opentox.org/mailman/listinfo/development > > > _______________________________________________ > Development mailing list > Development at opentox.org > http://www.opentox.org/mailman/listinfo/development >
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